MSnID-package	MSnID-package
$,MSnID-method	MSnID-class
$,MSnIDFilter-method	MSnIDFilter-class
$<-,MSnID-method	MSnID-class
$<-,MSnIDFilter-method	MSnIDFilter-class
accessions	accessions
accessions,MSnID-method	MSnID-class
add_mod_symbol	add_mod_symbol
add_mod_symbol,MSnID-method	add_mod_symbol
apply_filter	apply_filter
apply_filter,MSnID,character-method	apply_filter
apply_filter,MSnID,MSnIDFilter-method	apply_filter
as.numeric,MSnIDFilter-method	MSnIDFilter-class
assess_missed_cleavages	assess_missed_cleavages
assess_missed_cleavages,MSnID-method	MSnID-class
assess_termini	assess_termini
assess_termini,MSnID-method	MSnID-class
class:MSnID	MSnID-class
class:MSnIDFilter	MSnIDFilter-class
coerce,MSnID,data.table-method	MSnID-class
coerce,MSnID,MSnSet-method	MSnID-class
correct_peak_selection	correct_peak_selection
correct_peak_selection,MSnID-method	MSnID-class
c_elegans	data
dim,MSnID-method	MSnID-class
evaluate_filter	evaluate_filter
evaluate_filter,MSnID-method	MSnID-class
fetch_conversion_table	fetch_conversion_table
id_quality	id_quality
id_quality,MSnID-method	MSnID-class
infer_parsimonious_accessions	infer_parsimonious_accessions
infer_parsimonious_accessions,MSnID-method	infer_parsimonious_accessions
length,MSnIDFilter-method	MSnIDFilter-class
map_mod_sites	map_mod_sites
map_mod_sites,MSnID-method	map_mod_sites
mass_measurement_error	mass_measurement_error
mass_measurement_error,MSnID-method	MSnID-class
MSnID	MSnID-class
MSnID-class	MSnID-class
MSnIDFilter	MSnIDFilter-class
MSnIDFilter-class	MSnIDFilter-class
msnidObj	data
names,MSnID-method	MSnID-class
names,MSnIDFilter-method	MSnIDFilter-class
optimize_filter	optimize_filter
optimize_filter,MSnIDFilter,MSnID-method	optimize_filter
peptides	peptides
peptides,MSnID-method	MSnID-class
proteins	accessions
proteins,MSnID-method	MSnID-class
psms	psms
psms,MSnID-method	MSnID-class
psms<-	psms
psms<-,MSnID,data.frame-method	MSnID-class
read_mzIDs	read_mzIDs
read_mzIDs,MSnID-method	MSnID-class
recalibrate	recalibrate
recalibrate,MSnID-method	MSnID-class
remap_accessions	remap_accessions-method
remap_accessions,MSnID-method	remap_accessions-method
remap_fasta_entry_names	remap_fasta_entry_names
report_mods	report_mods
report_mods,MSnID-method	report_mods
show,MSnID-method	MSnID-class
show,MSnIDFilter-method	MSnIDFilter-class
update,MSnIDFilter-method	MSnIDFilter-class
[[,MSnID,ANY,ANY-method	MSnID-class
[[,MSnID-method	MSnID-class
[[<-,MSnID,ANY,ANY,ANY-method	MSnID-class
